hzar.make.mcmcParam: Set the parameters controling the optimizer environment.
In hzar: Hybrid Zone Analysis using R

Description Usage Arguments Value Author(s) See Also Examples

Defines the general parameters controlling an MCMC process. This includes the burnin, chainLength, diangostic output, and the random number generator seed, as used by the MCMCmetrop1R optimizer.

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hzar.make.mcmcParam(chainLength, burnin, verbosity, thin,
  seedStreamChannel = 1, useSeedStream = TRUE, mersenneSeed = 12345,
  lecuyerSeed = rep(12345, 6))

`chainLength`	Defines how many generations to run the MCMC process after completing burnin.
`burnin`	Defines how many states to generate and discard at the begining of the chain.
`verbosity`	If 0, output nothing while mcmc process is running. If positive, print the model state every `verbosity` generations after burn-in.
`thin`	Keep only states whose number of generations after burn-in is evenly divisible by thin.
`seedStreamChannel`	Set the channel number used in the lecuyer random number generator.
`useSeedStream`	If TRUE, use the lecuyer random number generator in the MCMC process. If FALSE, use the mersenne twister random generator in the MCMC process.
`mersenneSeed`	Sets the seed value for mersenne twister. Expects a numeric of length 1.
`lecuyerSeed`	Sets the seed value for lecuyer random number generator. Expects a numeric of length 6.

A list of 5 values:

`chainLength`	The value of the mcmc argument for `MCMCmetrop1R`.
`burnin`	The value of the burnin argument for `MCMCmetrop1R`.
`verbosity`	The value of the verbose argument for `MCMCmetrop1R`.
`thin`	The value of the thin argument for `MCMCmetrop1R`.
`seed`	The value of the seed argument for `MCMCmetrop1R`.

Graham Derryberry asterion@alum.mit.edu

MCMCmetrop1R

##TODO

Loading required package: MCMCpack
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## Markov Chain Monte Carlo Package (MCMCpack)
## Copyright (C) 2003-2019 Andrew D. Martin, Kevin M. Quinn, and Jong Hee Park
##
## Support provided by the U.S. National Science Foundation
## (Grants SES-0350646 and SES-0350613)
##
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